Contacts of the helix formed by residues 10 - 39 (chain K) in PDB entry 4E45
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLN 10 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9K GLU* 1.3 77.7 - - - +
11K GLN* 1.3 57.0 + - - +
13K PHE* 3.8 9.4 + - - +
14K SER* 3.2 26.5 + - - -
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Residues in contact with GLN 11 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9K GLU 3.2 6.3 - - - +
10K GLN* 1.3 76.1 - - - +
12K ARG* 1.3 64.0 + - - +
14K SER* 3.5 5.4 + - - +
15K TYR* 3.1 24.4 + - - +
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Residues in contact with ARG 12 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9K GLU* 3.5 18.6 + - - +
11K GLN* 1.3 74.7 - - - +
13K PHE* 1.3 65.6 + - - +
15K TYR* 3.2 8.0 + - - +
16K GLN* 3.0 23.9 + - - +
21L LEU* 6.1 0.9 - - - +
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Residues in contact with PHE 13 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9K GLU 3.3 13.8 + - - +
10K GLN* 3.8 10.1 - - - +
12K ARG* 1.3 79.2 - - - +
14K SER* 1.3 63.2 + - - +
16K GLN* 3.3 22.3 + - - +
17K GLN* 2.9 62.0 + - + +
780O GLU 5.9 0.2 - - - -
784O TYR* 3.6 19.5 - + - -
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Residues in contact with SER 14 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K GLN 3.2 15.6 + - - -
11K GLN* 3.9 6.3 - - - -
12K ARG 3.3 0.4 - - - -
13K PHE* 1.3 82.1 - - - +
15K TYR* 1.3 57.7 + - - +
17K GLN* 3.2 3.1 + - - +
18K ARG* 2.9 27.0 + - - +
784O TYR* 3.4 32.1 - - - -
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Residues in contact with TYR 15 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11K GLN 3.1 18.3 + - - +
12K ARG* 3.6 6.3 - - - +
14K SER* 1.3 72.9 - - - +
16K GLN* 1.3 64.9 - - - +
18K ARG* 3.0 46.4 + - - +
19K LEU* 2.9 43.7 + - + +
17L ARG* 3.0 43.9 + - + +
21L LEU* 4.2 23.1 - - + -
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Residues in contact with GLN 16 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12K ARG 3.0 12.7 + - - +
13K PHE* 3.5 27.2 - - - +
15K TYR* 1.3 77.0 - - - +
17K GLN* 1.3 77.1 + - - +
19K LEU* 3.3 7.4 + - - +
20K LYS* 2.9 49.0 + - - +
55K PHE* 4.3 14.3 - - + -
21L LEU* 4.9 12.7 - - + +
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Residues in contact with GLN 17 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K PHE* 2.9 49.8 + - + +
14K SER 3.7 4.5 - - - +
15K TYR 3.2 0.2 - - - -
16K GLN* 1.3 99.3 + - - +
18K ARG* 1.3 60.2 + - - +
20K LYS* 3.8 15.1 + - - +
21K ALA* 3.0 29.6 + - - +
780O GLU* 3.5 13.9 + - - +
781O VAL* 3.3 31.5 - - - +
784O TYR* 3.7 28.8 - - + +
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Residues in contact with ARG 18 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14K SER 2.9 13.0 + - - +
15K TYR* 3.1 43.3 - - - +
17K GLN* 1.3 76.5 - - - +
19K LEU* 1.3 64.8 + - - +
21K ALA* 3.2 4.2 + - - +
22K ALA* 3.1 22.5 + - - +
17L ARG* 3.8 25.4 - - - +
784O TYR* 3.6 20.4 - - + +
785O LEU* 5.1 1.0 - - - -
786O GLN* 3.4 40.6 + - - +
788O GLU* 5.6 3.6 - - - +
789O ASP* 2.8 42.7 + - - +
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Residues in contact with LEU 19 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15K TYR* 2.9 43.9 + - + +
16K GLN* 3.7 7.2 - - - +
18K ARG* 1.3 85.2 - - + +
20K LYS* 1.3 61.8 + - - +
22K ALA* 3.3 2.8 + - - +
23K VAL* 3.0 25.7 + - - +
55K PHE* 3.9 13.2 - - + -
14L LEU* 3.7 24.0 - - + +
17L ARG* 4.0 38.4 - - + +
18L LEU* 4.1 8.7 - - + +
21L LEU* 3.9 25.4 - - + -
789O ASP* 5.1 1.8 - - - +
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Residues in contact with LYS 20 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16K GLN* 2.9 33.2 + - - +
17K GLN* 3.8 32.6 + - - +
19K LEU* 1.3 74.5 - - - +
21K ALA* 1.3 52.2 + - - +
23K VAL* 3.2 5.7 + - - +
24K HIS* 2.6 36.6 + - - +
51K SER* 5.3 0.2 - - - -
52K GLU* 3.1 28.3 + - - +
55K PHE* 3.8 37.2 - - + -
777O TYR* 3.8 25.3 + - + +
781O VAL* 4.2 10.1 - - + -
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Residues in contact with ALA 21 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17K GLN 3.0 16.0 + - - +
18K ARG 3.2 4.9 + - - +
20K LYS* 1.3 75.9 - - - +
22K ALA* 1.3 51.3 + - - +
24K HIS* 3.0 3.9 + - - +
25K TYR* 2.7 35.2 + - - +
781O VAL* 3.3 39.0 - - + +
782O GLU* 4.7 1.6 - - - +
785O LEU* 3.6 28.4 - - + +
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Residues in contact with ALA 22 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18K ARG 3.1 8.4 + - - +
19K LEU 3.6 7.6 - - - +
21K ALA* 1.3 74.3 - - - +
23K VAL* 1.3 66.1 + - - +
25K TYR 3.3 0.5 + - - -
26K THR* 2.8 31.3 + - - -
14L LEU* 3.7 24.5 - - + -
785O LEU* 3.9 7.7 - - + +
789O ASP* 3.9 13.7 - - + +
790O VAL* 3.6 25.4 - - + +
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Residues in contact with VAL 23 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19K LEU 3.0 17.2 + - - +
20K LYS* 3.4 10.8 - - - +
22K ALA* 1.3 76.5 - - - +
24K HIS* 1.3 63.9 + - - +
26K THR* 3.2 1.4 + - - -
27K VAL* 2.9 38.6 + - + +
51K SER 3.4 27.6 - - - +
54K THR* 4.2 13.9 - - + -
55K PHE* 4.2 12.3 - - + +
58K CYS* 5.7 0.2 - - - -
10L PHE* 4.4 13.5 - - + -
14L LEU* 4.7 2.5 - - + -
18L LEU* 3.8 35.0 - - + -
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Residues in contact with HIS 24 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K LYS 2.6 20.1 + - - +
21K ALA* 3.0 9.1 + - - +
23K VAL* 1.3 75.0 - - - +
25K TYR* 1.3 63.6 + - - +
28K GLY* 3.1 20.7 + - - -
44K LYS 5.1 2.0 - - - -
47K ILE* 3.9 22.4 - - + +
48K ALA* 4.3 13.5 - - + -
51K SER* 3.1 33.4 + - - +
775O CYS* 6.2 0.2 - - - -
777O TYR* 4.1 12.4 - + + -
778O GLU* 4.1 23.8 - - + +
781O VAL* 4.1 18.2 - - + -
782O GLU* 5.4 6.7 - - + -
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Residues in contact with TYR 25 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21K ALA 2.7 17.9 + - - +
22K ALA 3.3 4.0 + - - +
24K HIS* 1.3 76.4 - - - +
26K THR* 1.3 68.4 + - - +
28K GLY* 3.4 1.8 + - - -
29K CYS* 3.2 44.4 + - - -
785O LEU* 3.8 27.1 - - + -
787O MET* 4.3 23.9 - - + +
790O VAL* 3.8 30.5 - - + -
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Residues in contact with THR 26 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22K ALA 2.8 18.6 + - - -
23K VAL 3.7 3.1 - - - -
25K TYR* 1.3 81.5 - - - +
27K VAL* 1.3 57.4 + - - +
29K CYS* 3.0 9.2 + - + +
30K LEU* 2.9 35.1 + - + +
9L GLY* 3.3 37.4 + - - +
10L PHE* 3.8 28.8 - - + -
14L LEU* 4.5 2.4 - - - +
790O VAL* 3.9 12.6 - - - +
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Residues in contact with VAL 27 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23K VAL* 2.9 27.1 + - + +
24K HIS 3.9 0.2 - - - +
26K THR* 1.3 74.3 - - - +
28K GLY* 1.3 60.4 + - - +
30K LEU* 3.2 1.1 + - - -
31K CYS* 2.8 41.0 + - - -
47K ILE* 3.9 9.0 - - + +
50K ILE* 3.7 26.2 - - + -
51K SER* 3.5 32.8 - - - +
54K THR* 4.2 11.9 - - - +
10L PHE* 4.5 5.2 - - + -
46L VAL* 4.1 18.4 - - + -
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Residues in contact with GLY 28 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K HIS 3.1 14.9 + - - -
25K TYR 3.7 3.8 - - - -
26K THR 3.3 0.2 - - - -
27K VAL* 1.3 77.4 - - - +
29K CYS* 1.3 56.2 + - - +
31K CYS* 3.8 1.0 - - - +
32K GLU* 2.8 30.5 + - - +
47K ILE* 3.9 24.7 - - - +
----------------------------------------------------------
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Residues in contact with CYS 29 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25K TYR* 3.2 49.2 + - - -
26K THR* 3.0 11.7 + - + +
28K GLY* 1.3 73.7 - - - +
30K LEU* 1.3 58.2 + - - +
32K GLU* 3.1 9.6 + - - +
33K GLU* 2.9 33.3 + - - +
8L SER* 4.0 21.5 - - - -
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Residues in contact with LEU 30 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26K THR* 2.9 25.6 + - + +
27K VAL 3.8 3.1 - - - +
29K CYS* 1.3 75.9 - - - +
31K CYS* 1.3 58.0 + - - +
33K GLU* 3.1 23.9 + - - +
34K VAL* 2.8 32.4 + - - +
8L SER* 3.7 25.4 - - - +
9L GLY* 4.9 1.6 - - - -
10L PHE* 3.8 30.3 - - + -
43L LYS* 4.0 29.2 - - + +
46L VAL* 4.0 25.4 - - + -
47L VAL* 4.7 8.9 - - + +
50L ALA* 5.9 0.2 - - - -
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Residues in contact with CYS 31 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K VAL* 2.8 40.1 + - - +
28K GLY 3.9 2.9 - - - +
30K LEU* 1.3 70.9 - - - +
32K GLU* 1.3 57.3 + - - +
34K VAL* 4.2 7.0 - - - +
35K ALA* 2.7 37.1 + - - +
42K PHE* 3.4 18.9 - - + -
47K ILE* 4.2 20.2 - - + -
50K ILE* 4.0 22.9 - - - -
46L VAL* 4.7 5.4 - - - -
50L ALA* 4.1 12.3 - - - -
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Residues in contact with GLU 32 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K GLY 2.8 16.2 + - - +
29K CYS* 3.1 13.0 + - - +
31K CYS* 1.3 76.3 - - - +
33K GLU* 1.3 62.9 + - + +
35K ALA* 3.3 6.3 + - - +
36K LEU* 3.2 22.5 + - - +
47K ILE* 5.7 0.6 - - - +
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Residues in contact with GLU 33 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29K CYS 2.9 15.3 + - - +
30K LEU* 3.3 21.4 - - - +
32K GLU* 1.3 77.8 - - + +
34K VAL* 1.3 63.5 + - + +
36K LEU* 3.4 6.6 + - - +
37K ASP* 3.2 21.4 + - - +
8L SER* 2.7 40.1 + - - -
43L LYS* 4.4 11.8 + - - -
47L VAL* 6.0 0.3 - - - +
----------------------------------------------------------
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Residues in contact with VAL 34 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K LEU 2.8 23.8 + - - +
31K CYS 3.3 4.0 + - - +
33K GLU* 1.3 74.3 - - + +
35K ALA* 1.3 58.8 + - - +
37K ASP* 3.1 7.0 + - + +
38K LYS* 2.9 39.3 + - + +
42K PHE* 4.1 15.5 - - + -
47L VAL* 4.2 30.3 - - + -
50L ALA* 4.1 20.6 - - + -
51L VAL* 3.9 22.9 - - + +
54L VAL* 4.6 3.4 - - + -
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Residues in contact with ALA 35 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31K CYS 2.7 22.6 + - - +
32K GLU* 3.3 6.9 + - - +
34K VAL* 1.3 72.6 - - - +
36K LEU* 1.3 56.4 + - - +
38K LYS* 5.4 0.9 - - - -
39K GLU* 2.9 22.7 + - - -
40K MET 3.0 34.0 + - - +
41K GLN* 4.0 25.5 + - - +
42K PHE* 3.6 13.2 - - + -
54L VAL* 6.0 0.2 - - - -
----------------------------------------------------------
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Residues in contact with LEU 36 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32K GLU 3.2 12.1 + - - +
33K GLU* 3.5 11.2 - - - +
35K ALA* 1.3 76.0 - - - +
37K ASP* 1.3 62.7 + - - +
39K GLU* 3.3 21.9 + - - +
41K GLN* 5.6 0.9 - - - +
----------------------------------------------------------
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Residues in contact with ASP 37 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33K GLU 3.2 9.5 + - - +
34K VAL* 3.1 11.4 + - + +
36K LEU* 1.3 82.1 - - - +
38K LYS* 1.3 84.6 + - + +
39K GLU* 4.3 8.3 - - - +
----------------------------------------------------------
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Residues in contact with LYS 38 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34K VAL* 2.9 27.1 + - + +
35K ALA* 5.4 0.2 - - - -
37K ASP* 1.3 97.6 + - - +
39K GLU* 1.3 74.9 + - - +
40K MET* 4.3 4.0 - - + +
51L VAL* 4.3 27.9 - - + +
54L VAL* 4.0 32.8 - - + -
58L GLN* 4.4 12.7 + - - +
711O SER 5.1 3.9 + - - -
712O SER* 6.0 1.0 - - - +
----------------------------------------------------------
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Residues in contact with GLU 39 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35K ALA 2.9 15.1 + - - -
36K LEU* 3.3 13.7 + - - +
37K ASP 4.3 6.9 - - - +
38K LYS* 1.3 83.7 - - - +
40K MET* 1.3 61.6 + - - +
41K GLN* 5.1 2.5 - - - +
58L GLN* 5.6 0.3 + - - -
----------------------------------------------------------
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il